This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


1fi2

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:15, 20 March 2024) (edit) (undo)
 
(13 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1fi2.gif|left|200px]]
 
-
{{Structure
+
==CRYSTAL STRUCTURE OF GERMIN (OXALATE OXIDASE)==
-
|PDB= 1fi2 |SIZE=350|CAPTION= <scene name='initialview01'>1fi2</scene>, resolution 1.6&Aring;
+
<StructureSection load='1fi2' size='340' side='right'caption='[[1fi2]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>
+
<table><tr><td colspan='2'>[[1fi2]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Hordeum_vulgare Hordeum vulgare]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FI2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1FI2 FirstGlance]. <br>
-
|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Oxalate_oxidase Oxalate oxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.2.3.4 1.2.3.4] </span>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6&#8491;</td></tr>
-
|GENE=
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
-
|DOMAIN=
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1fi2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fi2 OCA], [https://pdbe.org/1fi2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1fi2 RCSB], [https://www.ebi.ac.uk/pdbsum/1fi2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1fi2 ProSAT]</span></td></tr>
-
|RELATEDENTRY=[[2phl|2PHL]]
+
</table>
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1fi2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fi2 OCA], [http://www.ebi.ac.uk/pdbsum/1fi2 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1fi2 RCSB]</span>
+
== Function ==
-
}}
+
[https://www.uniprot.org/uniprot/OXO1_HORVU OXO1_HORVU] Releases hydrogen peroxide in the apoplast which may be important for cross-linking reactions in the cell wall biochemistry. May play an important role in several aspects of plant growth and defense mechanisms.
-
 
+
== Evolutionary Conservation ==
-
'''CRYSTAL STRUCTURE OF GERMIN (OXALATE OXIDASE)'''
+
[[Image:Consurf_key_small.gif|200px|right]]
-
 
+
Check<jmol>
-
 
+
<jmolCheckbox>
-
==Overview==
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fi/1fi2_consurf.spt"</scriptWhenChecked>
-
Germin is a hydrogen peroxide generating oxalate oxidase with extreme thermal stability; it is involved in the defense against biotic and abiotic stress in plants. The structure, determined at 1.6 A resolution, comprises beta-jellyroll monomers locked into a homohexamer (a trimer of dimers), with extensive surface burial accounting for its remarkable stability. The germin dimer is structurally equivalent to the monomer of the 7S seed storage proteins (vicilins), indicating evolution from a common ancestral protein. A single manganese ion is bound per germin monomer by ligands similar to those of manganese superoxide dismutase (MnSOD). Germin is also shown to have SOD activity and we propose that the defense against extracellular superoxide radicals is an important additional role for germin and related proteins.
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
 
+
<text>to colour the structure by Evolutionary Conservation</text>
-
==About this Structure==
+
</jmolCheckbox>
-
1FI2 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Hordeum_vulgare Hordeum vulgare]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FI2 OCA].
+
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1fi2 ConSurf].
-
 
+
<div style="clear:both"></div>
-
==Reference==
+
__TOC__
-
Germin is a manganese containing homohexamer with oxalate oxidase and superoxide dismutase activities., Woo EJ, Dunwell JM, Goodenough PW, Marvier AC, Pickersgill RW, Nat Struct Biol. 2000 Nov;7(11):1036-40. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11062559 11062559]
+
</StructureSection>
[[Category: Hordeum vulgare]]
[[Category: Hordeum vulgare]]
-
[[Category: Oxalate oxidase]]
+
[[Category: Large Structures]]
-
[[Category: Single protein]]
+
[[Category: Dunwell JM]]
-
[[Category: Dunwell, J M.]]
+
[[Category: Goodenough PW]]
-
[[Category: Goodenough, P W.]]
+
[[Category: Marvier AC]]
-
[[Category: Marvier, A C.]]
+
[[Category: Pickersgill RW]]
-
[[Category: Pickersgill, R W.]]
+
[[Category: Woo EJ]]
-
[[Category: Woo, E J.]]
+
-
[[Category: beta-jellyroll]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 20:23:18 2008''
+

Current revision

CRYSTAL STRUCTURE OF GERMIN (OXALATE OXIDASE)

PDB ID 1fi2

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1fi2"
Personal tools